T cell receptor sequence motif combination recognition and detection method, storage medium and equipment

Abstract

The invention discloses a T cell receptor sequence motif combination recognition and detection method, a storage medium and equipment. The method comprises the following steps: constructing a Tumor-Health matrix and a Tissue-Blood matrix as input matrixes; the intra-class and inter-class distance separability of the motif combination is used as an optimization objective function; designing a double-population genetic algorithm, performing correlation analysis on each motif column and each label column in the input matrix, and adopting point two-column correlation as an index for measuring whether the motif column and the label column are correlated or not; taking an optimization objective function as an algorithm optimization objective, performing preliminary screening on motif of an input matrix by means of correlation indexes, filtering out irrelevant motif columns, performing iterative calculation through a genetic algorithm to obtain dominant solutions of two groups of populations, taking chromosomes with first three fitness in the two groups of populations as optimal solutions, and decoding the optimal solutions into corresponding motif sets; and taking an intersection of the corresponding sets as a finally mined motif, and completing identification and detection. According to the invention, a possible biomarker research direction can be provided for immunotherapy.

Description

technical field [0001] The invention belongs to the technical field of data analysis, and in particular relates to a T cell receptor sequence motif combination identification and detection method, storage medium and equipment. Background technique [0002] The immune repertoire is the sum of all functionally diverse B and T lymphocytes in the circulation of an individual at any given point in time. T cell receptor (T cell receptor, TCR) is a medium for cell recognition of antigens, which can reflect the pathogenesis of tumors, tumor progression and immune response, among which CDR3 (Complementarity determining region, CDR) can directly interact with antigen complexes and is highly Variable, often used to determine T cell clonal type. [0003] In recent years, the development and continuous maturity of high-throughput sequencing technology of immune repertoire has opened up a new way for researchers to study the diversity of T cell receptor sequences, so that T cell receptor...

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Problems solved by technology

[0007] The technical problem to be solved by the present invention is to provide a T-cell receptor sequence motif combination recognition detection method, storage medium and equipment for the deficiencies in the above-mentioned prior art, and use motif deconstruction when analyzing T-cell receptor sequence data The method alleviates the problem of dimensionality, and pays attention to the difference between the two kinds of data at the same time, that is, not only the result of the comparative analysis of the T cell receptor data of the healthy sample and the tumor sample, but also the difference in the peripheral blood and tissue of the tumor sample itself; according to Existing research results put forward a reasonable inference: the presence of motif fragments of the T cell receptor sequence is different between healthy samples and tumor samples, while excluding the possibility of personalized motifs, these fragments in peripheral blood and tissue sequencing of tumor samples There are also differences, and fragments that conform to this rule are more specific

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